Sunpoet Po-Chuan Hsieh 7d33b22118 Update PYTHON option to use Python 3		2020-09-27 19:30:20 +00:00
..
abyss	biology/abyss: Update 2.2.4 -> 2.2.5	2020-09-27 06:59:05 +00:00
artemis
avida
babel
bamtools
bcftools
bedtools
bioawk
biococoa
bolt-lmm	Canonicalize powerpc64le CXXFLAGS to be the same as powerpc64.	2020-09-27 07:41:33 +00:00
bowtie
bowtie2
bwa
canu	biology/canu: Upgrade to 2.1	2020-09-14 22:27:37 +00:00
cd-hit
cdbfasta
checkm
clustal-omega
clustalw
cufflinks
cytoscape
ddocent
diamond	biology/diamond: Update to version 2.0.4	2020-08-30 16:14:22 +00:00
dsr-pdb
emboss
exonerate
fasta
fasta3
fastahack
fastdnaml
fastool
fastp
fastqc
fasttree
fastx-toolkit
figtree
fluctuate
freebayes	Fix build with -fno-common	2020-09-21 18:14:57 +00:00
garlic
gatk	biology/gatk: Fix build	2020-09-08 19:25:36 +00:00
gcta
gemma
gff2ps
gmap	biology/gmap: Upgrade to 2020.09.12	2020-09-22 00:55:39 +00:00
gperiodic
graphlan
grappa
groopm
hhsuite
hisat2
hmmer	Also enable on powerpc64le.	2020-09-24 20:29:35 +00:00
htslib
hyphy	biology/hyphy: Update to version 2.5.18 and add AVX option	2020-09-02 17:47:10 +00:00
igv
infernal	Also enable on powerpc64le.	2020-09-24 20:38:59 +00:00
iolib
iqtree
jalview
jellyfish
kallisto
lagan
lamarc
libbigwig
libgtextutils
libsbml	Update PYTHON option to use Python 3	2020-09-27 19:30:20 +00:00
linux-foldingathome
mafft
mapm3	biology/mapm3: Reformat patches.	2020-09-04 12:24:23 +00:00
migrate
minimap2
molden
mopac
mothur
mrbayes
mummer
muscle
ncbi-blast+
ncbi-cxx-toolkit	biology/ncbi-cxx-toolkit: Fix build on 13	2020-09-27 04:57:44 +00:00
ncbi-toolkit
ngs-sdk
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Cluster
p5-Bio-Coordinate
p5-Bio-Das
p5-Bio-Das-Lite
p5-Bio-DB-EMBL
p5-Bio-DB-NCBIHelper
p5-Bio-FeatureIO
p5-Bio-GFF3
p5-Bio-Glite
p5-Bio-Graphics
p5-Bio-MAGETAB
p5-Bio-NEXUS
p5-Bio-Phylo
p5-Bio-SCF
p5-Bio-Variation
p5-BioPerl
p5-BioPerl-Run
p5-transdecoder
p5-TrimGalore
paml
pbbam
pbseqan
pear-merger
phrap
phred
phylip
phyml
picard-tools	biology/picard-tools: Remove extraneous file	2020-08-30 14:06:54 +00:00
plink	Allow building on powerpc64le.	2020-09-27 07:44:15 +00:00
primer3
prodigal
prodigy-lig
protomol
psi88
py-biom-format	biology/py-biom-format: Fix fetch and relax scipy requirement	2020-09-26 09:10:37 +00:00
py-biopython
py-bx-python
py-cutadapt
py-dnaio
py-ete3	biology/py-ete3: Update 3.1.1 -> 3.1.2	2020-09-02 03:54:04 +00:00
py-fastTSNE
py-Genesis-PyAPI
py-gffutils
py-gtfparse
py-hits
py-loompy
py-macs2
py-multiqc	Unbreak bulk -a	2020-09-19 14:15:42 +00:00
py-orange3-bioinformatics
py-orange3-single-cell
py-pandas-charm
py-pyfaidx	biology/py-pyfaidx: Update 0.5.5.2 -> 0.5.9.1	2020-09-13 19:05:30 +00:00
py-pysam
py-scikit-bio	biology/py-scikit-bio: Fix build on the i386 architecture	2020-09-24 23:16:26 +00:00
py-xenaPython
pyfasta
python-nexus
rainbow
recombine
ruby-bio
rubygem-bio
rubygem-bio-executables
rubygem-bio-old-biofetch-emulator
rubygem-bio-shell
samtools
scrm
seaview
seqan
seqan1
seqan-apps
seqio
seqtk
sim4
slclust
smithwaterman
stacks
star
stringtie
subread	biology/subread: Add -fcommon for clang 11	2020-09-18 00:57:35 +00:00
tabixpp
treekin
treepuzzle
trimadap
trimmomatic
tRNAscan-SE
ugene
vcflib
vcftools
velvet
viennarna	biology/viennarna: Update 2.4.14 -> 2.4.15	2020-09-07 21:49:07 +00:00
vsearch
vt
wise
Makefile	biology/py-biom-format: Restore in preparation for an update to v2.1.8	2020-09-24 19:31:43 +00:00